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Título
Unveiling the genomic potential of Pseudomonas type strains for discovering new natural products
Autor(es)
Palabras clave
BGCs
BiG-SCAPE / CORASON
Comparative genomics
EvoMining
Pan-genome
Secondary metabolites
Clasificación UNESCO
2414 Microbiología
Fecha de publicación
2022-02-23
Editor
Microbiology Society
Citación
Saati-Santamaría, Z., Selem-Mojica, N., Peral-Aranega, E., Rivas, R., & García-Fraile, P. (2022). Unveiling the genomic potential of Pseudomonas type strains for discovering new natural products. Microbial genomics, 8(2). https://doi.org/10.1099/mgen.0.000758
Resumen
[EN]Microbes host a huge variety of biosynthetic gene clusters that produce an immeasurable array of secondary metabolites
with many different biological activities such as antimicrobial, anticarcinogenic and antiviral. Despite the complex task of isolating
and characterizing novel natural products, microbial genomic strategies can be useful for carrying out these types of
studies. However, although genomic-based
research on secondary metabolism is on the increase, there is still a lack of reports
focusing specifically on the genus Pseudomonas. In this work, we aimed (i) to unveil the main biosynthetic systems related to
secondary metabolism in Pseudomonas type strains, (ii) to study the evolutionary processes that drive the diversification of
their coding regions and (iii) to select Pseudomonas strains showing promising results in the search for useful natural products.
We performed a comparative genomic study on 194 Pseudomonas species, paying special attention to the evolution and
distribution of different classes of biosynthetic gene clusters and the coding features of antimicrobial peptides. Using EvoMining,
a bioinformatic approach for studying evolutionary processes related to secondary metabolism, we sought to decipher
the protein expansion of enzymes related to the lipid metabolism, which may have evolved toward the biosynthesis of novel
secondary metabolites in Pseudomonas. The types of metabolites encoded in Pseudomonas type strains were predominantly
non-ribosomal
peptide synthetases, bacteriocins, N-acetylglutaminylglutamine
amides and ß-lactones. Also, the evolution of
genes related to secondary metabolites was found to coincide with Pseudomonas species diversification. Interestingly, only a
few Pseudomonas species encode polyketide synthases, which are related to the lipid metabolism broadly distributed among
bacteria. Thus, our EvoMining-based
search may help to discover new types of secondary metabolite gene clusters in which
lipid-related
enzymes are involved. This work provides information about uncharacterized metabolites produced by Pseudomonas
type strains, whose gene clusters have evolved in a species-specific
way. Our results provide novel insight into the
secondary metabolism of Pseudomonas and will serve as a basis for the prioritization of the isolated strains. This article contains
data hosted by Microreact.
URI
DOI
10.1099/mgen.0.000758
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